1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
Nakamura, G.R.
Reynolds, M.E.
Chen, Y.M.
Starovasnik, M.A.
Lowman, H.B.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
C3 H7 N O2
89.093
y
ALANINE
L-peptide linking
C4 H7 N O4
133.103
y
ASPARTIC ACID
L-peptide linking
C3 H7 N O2 S
121.158
y
CYSTEINE
L-peptide linking
C2 H5 N O2
75.067
y
GLYCINE
peptide linking
C6 H13 N O2
131.173
y
LEUCINE
L-peptide linking
C6 H15 N2 O2 1
147.195
y
LYSINE
L-peptide linking
H2 N
16.023
AMINO GROUP
non-polymer
C5 H9 N O2
115.130
y
PROLINE
L-peptide linking
C9 H11 N O3
181.189
y
TYROSINE
L-peptide linking
C5 H11 N O2
117.146
y
VALINE
L-peptide linking
US
Proc.Natl.Acad.Sci.USA
PNASA6
0040
0027-8424
99
1303
1308
10.1073/pnas.022635599
11830661
Stable "zeta" peptides that act as potent antagonists of the high-affinity IgE receptor.
2002
10.2210/pdb1kcn/pdb
pdb_00001kcn
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
1
SINGLE WAVELENGTH
M
1
1.0
2143.615
e109 zeta peptide
1
syn
polymer
no
yes
ALCPAVCYVGGKALCPDVCYV(NH2)
ALCPAVCYVGGKALCPDVCYVX
A
polypeptide(L)
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
n
database_2
pdbx_nmr_software
pdbx_struct_assembly
pdbx_struct_oper_list
struct_conn
struct_site
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
1
0
2002-03-06
1
1
2008-04-27
1
2
2011-07-13
1
3
2022-02-23
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_nmr_software.name
_struct_conn.pdbx_leaving_atom_flag
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
'Structure of e131 zeta peptide, a potent antagonist of the high-affinity IgE receptor'
RCSB
Y
RCSB
2001-11-09
REL
'solid-phase peptide synthesis of a novel peptide based on a naive phage-peptide library that was sorted for binding to the high-affinity IGE receptor'
sample
This structure was determined using
standard 2D homonuclear techniques. 3JHNHA WERE OBTAINED BY FITTING LORENTZIAN LINES TO THE ANTIPHASE DOUBLETS OF HN-HA PEAKS
IN A 2QF-COSY SPECTRUM PROCESSED TO HIGH DIGITAL RESOLUTION IN F2. 3JHAHB WERE EXTRACTED FROM A COSY-35
SPECTRUM ACQUIRED IN D2O
structures with acceptable covalent geometry,structures with the least restraint violations
50
20
2D NOESY
DQF-COSY
2D TOCSY
2D COSY-35
2D NOESY
2D ROESY
5.4
ambient
288
K
The structures are based on a total of 101
NOE-derived distance restraints,
18 dihedral angle restraints, and 12 distant
restraints from 6 hydrogen bonds.
hybrid distance geometry/simulated
annealing, then further refined by
restrained molecular dynamics
1
closest to the average
2mM e109 peptide, 92% H2O/8% D2O, pH 5.4,
0.1 mM NaN3, 0.1 mM DSS
92% H2O/8% D2O
2mM e109 peptide, 100% D2O, pH 5.4,
0.1 mM NaN3, 0.1 mM DSS
100% D2O
Bruker, Inc.
collection
XwinNMR
2.1
Molecular Simulations, Inc.
data analysis
Felix
98.0
Molecular Simulations, Inc.
structure solution
DGII
98.0
Molecular Simulations, Inc.
refinement
Discover
98.0
500
Bruker
DRX
ALA
1
n
1
ALA
1
A
LEU
2
n
2
LEU
2
A
CYS
3
n
3
CYS
3
A
PRO
4
n
4
PRO
4
A
ALA
5
n
5
ALA
5
A
VAL
6
n
6
VAL
6
A
CYS
7
n
7
CYS
7
A
TYR
8
n
8
TYR
8
A
VAL
9
n
9
VAL
9
A
GLY
10
n
10
GLY
10
A
GLY
11
n
11
GLY
11
A
LYS
12
n
12
LYS
12
A
ALA
13
n
13
ALA
13
A
LEU
14
n
14
LEU
14
A
CYS
15
n
15
CYS
15
A
PRO
16
n
16
PRO
16
A
ASP
17
n
17
ASP
17
A
VAL
18
n
18
VAL
18
A
CYS
19
n
19
CYS
19
A
TYR
20
n
20
TYR
20
A
VAL
21
n
21
VAL
21
A
NH2
22
n
22
NH2
22
A
author_defined_assembly
1
monomeric
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
0.0000000000
0.0000000000
0.0000000000
1.0000000000
1_555
x,y,z
identity operation
0.0000000000
0.0000000000
0.0000000000
1
A
LYS
12
-138.10
-65.55
1
A
ALA
13
-160.03
115.58
1
A
LEU
14
-153.06
44.15
3
A
LEU
2
-153.47
46.17
3
A
LYS
12
-162.43
70.77
4
A
ALA
13
-144.91
42.62
6
A
TYR
8
-137.99
-57.01
6
A
ALA
13
-160.64
73.03
6
A
LEU
14
-151.92
43.36
8
A
CYS
7
-77.17
24.06
8
A
TYR
8
-148.77
-55.56
8
A
ALA
13
-144.13
53.05
9
A
ALA
13
-140.73
37.71
10
A
ALA
13
-81.32
39.63
11
A
LEU
14
-90.99
59.91
12
A
LYS
12
-119.30
-99.26
13
A
LEU
14
-108.07
54.09
14
A
LYS
12
-161.41
78.22
14
A
ALA
13
-80.57
43.57
16
A
LEU
14
-101.99
55.04
18
A
ALA
13
-74.31
42.54
19
A
LEU
14
-163.18
33.05
20
A
LEU
14
-153.90
-28.75
Structure of e109 Zeta Peptide, an Antagonist of the High-Affinity IgE Receptor
1
N
N
A
PRO
4
A
PRO
4
HELX_P
A
TYR
8
A
TYR
8
5
1
5
A
PRO
16
A
PRO
16
HELX_P
A
VAL
21
A
VAL
21
1
2
6
disulf
2.047
A
CYS
3
A
SG
CYS
3
1_555
A
CYS
19
A
SG
CYS
19
1_555
disulf
2.042
A
CYS
7
A
SG
CYS
7
1_555
A
CYS
15
A
SG
CYS
15
1_555
covale
1.335
both
A
VAL
21
A
C
VAL
21
1_555
A
NH2
22
A
N
NH2
22
1_555
PROTEIN BINDING
disulfide-bonded, helical, "zeta" structure, PROTEIN BINDING
1KCN
PDB
1
1KCN
1
22
1KCN
1
22
1KCN
A
1
1
22
BINDING SITE FOR RESIDUE NH2 A 22
A
NH2
22
Software
2
A
TYR
20
A
TYR
20
2
1_555
A
VAL
21
A
VAL
21
2
1_555